Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/75aeaf41b6380bc4dbc477aee55d52/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b0/09d3d91256a71c02165de0e6172207/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b0/09d3d91256a71c02165de0e6172207/.command.run
==> STAGING COMPLETE (6 inputs)

mkdir -p failed for path /.config/matplotlib: [Errno 13] Permission denied: '/.config'
Matplotlib created a temporary cache directory at /tmp/matplotlib-sl0hlokg because there was an issue with the default path (/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.
2026-06-02 19:05:44,966 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 19:05:45,736 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 19:05:45,900 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 19:06:07,969 - cnv_pipe.batch.run_model - INFO - Loaded data with 93 samples
2026-06-02 19:06:08,177 - cnv_pipe.batch.run_model - INFO - Processing cluster 97 with 167 probes
2026-06-02 19:06:08,544 - cnv_pipe.batch.run_model.cluster97 - INFO - Child process started for cluster 97 with 167 probes
2026-06-02 19:09:00,820 - cnv_pipe.batch.run_model.cluster97 - INFO - Child process finished cluster 97. Wrote cluster_97_samples.csv and cluster_97_params.csv
2026-06-02 19:09:00,822 - cnv_pipe.batch.run_model - INFO - Cluster 97 finished in 172.65 seconds. Status: SUCCESS